Classifications

• • C—CHEMISTRY; METALLURGY
  • C07—ORGANIC CHEMISTRY
  • C07D—HETEROCYCLIC COMPOUNDS
  • C07D487/00—Heterocyclic compounds containing nitrogen atoms as the only ring hetero atoms in the condensed system, not provided for by groups C07D451/00 - C07D477/00
  • C07D487/02—Heterocyclic compounds containing nitrogen atoms as the only ring hetero atoms in the condensed system, not provided for by groups C07D451/00 - C07D477/00 in which the condensed system contains two hetero rings
  • C07D487/04—Ortho-condensed systems
• • A—HUMAN NECESSITIES
  • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
  • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
  • A61P35/00—Antineoplastic agents
• • C—CHEMISTRY; METALLURGY
  • C07—ORGANIC CHEMISTRY
  • C07D—HETEROCYCLIC COMPOUNDS
  • C07D519/00—Heterocyclic compounds containing more than one system of two or more relevant hetero rings condensed among themselves or condensed with a common carbocyclic ring system not provided for in groups C07D453/00 or C07D455/00

Definitions

• the invention relates to compounds and methods for the selective inhibition of HDAC6.
• the present invention relates to compounds useful as HDAC6 inhibitors.
• the invention also provides pharmaceutical compositions comprising the compounds of the invention and methods of using the compositions in the treatment of various diseases.
• Histone deacetylase 6 is a member of a family of amidohydrolases commonly referred as histone or lysine deacetylases (HDACs or KDACs) as they catalyze the removal of acetyl groups from the s-amino group of lysine residues from proteins.
• the family includes 18 enzymes which can be divided in 3 main classes based on their sequence homology to yeast enzymes Rpd3 (Class I), Hda1 (Class II) and Sir2 (Class III).
• a fourth class was defined with the finding of a distinct mammalian enzyme—HDAC 11 (reviewed in Yang, et al., Nature Rev. Mol. Cell. Biol.
• HDAC1 HDAC1, 2, 3, 8
• HDAC4, 5, 6, 7, 9, 10 Class IV
• SIRT1-7 SIRT1-7
• NAD + nicotinamide adenine dinucleotide
• HDAC6 cytoskeletal proteins ⁇ -tubulin and cortactin; ⁇ -catenin which forms part of adherens junctions and anchors the actin cytoskeleton; the chaperone Hsp90; and the redox regulatory proteins peroxiredoxin (Prx) I and Prx II (reviewed in Boyault et al., Oncogene 2007, 26(37):5468-5476; Matthias et al., Cell Cycle 2008, 7(1):7-10; Li et al., J Biol. Chem. 2008, 283(19):12686-12690; Purgiani et al., Proc. Natl. Acad. Sci. USA 2009, 105(28):9633-9638).
• Prx peroxiredoxin
• HDAC6 mediates a wide range of cellular functions including microtubule-dependent trafficking and signaling, membrane remodeling and chemotactic motility, involvement in control of cellular adhesion, ubiquitin level sensing, regulation of chaperone levels and activity, and responses to oxidative stress. All of these functions may be important in tumorigenesis, tumor growth and survival as well as metastasis (Simms-Waldrip et al., Mol. Genet. Metabolism 2008, 94(3):283-286; Rodriguez-Gonzalez et al., Cancer Res. 2008, 68(8):2557-2560; Kapoor, Int. J. Cancer 2009, 124:509; Lee et al., Cancer Res.
• HDAC6 HDAC6-binding protein kinase inhibitor
• a proteasome inhibitor Kawaguchi et al., Cell 2003, 115(6):727-738; Iwata et al., J. Biol. Chem. 2005, 280(48): 40282-40292; Ding et al., Am. J. Pathol. 2007, 171:513-524, Pandey et al., Nature 2007, 447(7146):860-864).
• HDAC6 binds ubiquitinated or ubiquitin-like conjugated misfolded proteins which would otherwise induce proteotoxic stress and then serves as an adaptor protein to traffic the ubiquitinated cargo to the microtubule organizing center using the microtubule network via its known association with dynein motor protein.
• the resulting perinuclear aggregates, known as aggresomes are then degraded by fusion with lysosomes in an HDAC6- and cortactin-dependent process which induces remodeling of the actin cytoskeleton proximal to aggresomes (Lee et al., EMBO J. 2010, 29:969-980).
• HDAC6 regulates a variety of biological processes dependent on its association with the microtubular network including cellular adhesion (Tran et al., J. Cell Sci. 2007, 120(8):1469-1479) and migration (Zhang et al., Mol. Cell. 2007, 27(2):197-213; reviewed in Valenzuela-Fernandez et al., Trends Cell. Biol. 2008, 18(6):291-297), epithelial to mesenchymal transition (Shan et al., J. Biol. Chem. 2008, 283(30):21065-21073), resistance to anoikis (Lee et al., Cancer Res.
• cellular adhesion Tran et al., J. Cell Sci. 2007, 120(8):1469-1479
• migration Zhang et al., Mol. Cell. 2007, 27(2):197-213; reviewed in Valenzuela-Fernandez et al., Trends Cell. Biol. 2008, 18(6):291-297
• HDAC6 activity is known to be upregulated by Aurora A kinase in cilia formation (Pugacheva et al., Cell 2007, 129(7):1351-1363) and indirectly by farnesyl transferase with which HDAC6 forms a complex with microtubules (Zhou et al., J. Biol. Chem. 2009, 284(15): 9648-9655). Also, HDAC6 is negatively regulated by tau protein (Perez et al., J. Neurochem. 2009, 109(6):1756-1766).
• cancers in which selective HDAC6 inhibition could have a potential benefit include cancer (reviewed in Simms-Waldrip et al., Mol. Genet. Metabolism 2008, 94(3):283-286 and Rodriguez-Gonzalez et al., Cancer Res. 2008, 68(8):2557-2560), specifically: multiple myeloma (Hideshima et al., Proc. Natl. Acad. Sci. USA 2005, 102(24):8567-8572); lung cancer (Kamemura et al., Biochem. Biophys. Res. Commun. 2008, 374(1):84-89); ovarian cancer (Bazzaro et al., Clin. Cancer Res.
• leukemias such as acute myeloid leukemia (AML) (Fiskus et al., Blood 2008, 112(7):2896-2905) and acute lymphoblastic leukemia (ALL) (Rodriguez-Gonzalez et al., Blood 2008, 112(11): Abstract 1923).
• AML acute myeloid leukemia
• ALL acute lymphoblastic leukemia
• HDAC6 may also have a role in cardiovascular disease, i.e. cardiovascular stress, including pressure overload, chronic ischemia, and infarction-reperfusion injury (Tannous et al., Circulation 2008, 117(24):3070-3078); bacterial infection, including those caused by uropathogenic Escherichia coli (Dhakal and Mulve, J. Biol. Chem. 2008, 284(1):446-454); neurological diseases caused by accumulation of intracellular protein aggregates such as Huntington's disease (reviewed in Kazantsev et al., Nat. Rev. Drug Disc. 2008, 7(10):854-868; see also Dompierre et al., J. Neurosci.
• cardiovascular stress including pressure overload, chronic ischemia, and infarction-reperfusion injury (Tannous et al., Circulation 2008, 117(24):3070-3078); bacterial infection, including those caused by uropathogenic Escherichia coli (Dhakal and Mul
• HDAC6 histone deacetylase 6
• Hsp90 inhibitors Rost al., Blood 2008, 112(5)1886-1893
• inhibitors of Hsp90 client proteins including receptor tyrosine kinases such as Her-2 or VEGFR (Bhalla et al., J. Clin. Oncol. 2006, 24(18S): Abstract 1923; Park et al., Biochem. Biophys. Res. Commun.
• HDAC6 inhibitors could be combined with radiation therapy (Kim et al., Radiother. Oncol. 2009, 92(1):125-132).
• the present invention provides compounds that are effective inhibitors of HDAC6. These compounds are useful for inhibiting HDAC6 activity in vitro and in vivo, and are especially useful for the treatment of various cell proliferative diseases or disorders.
• the compounds of the invention are represented by formula (I):
• X 1 is CH or N
• X 2 is CH or N
• n 1-2;
• R 1a is hydrogen, fluoro, C 1-4 alkyl, or C 1-3 fluoroalkyl
• R 1b is hydrogen, fluoro, C 1-4 alkyl, or C 1-3 fluoroalkyl; or R 1a and R 1b are taken together to form an oxo group;
• each occurrence of R 1c is independently hydrogen, fluoro, C 1-4 alkyl, or C 1-3 fluoroalkyl;
• each occurrence of R 1d is independently hydrogen, fluoro, C 1-4 alkyl, or C 1-3 fluoroalkyl;
• G is —R 3 , —V 1 —R 3 , —V 1 -L 1 -R 3 , -L 2 -V 1 —R 3 , -L 2 -V 2 —R 3 , or -L 1 -R 3 ; or when R 1a and R 1b are taken together to form an oxo group, G is —R 3 , or -L 1 -R 3 ;
• L 1 is an unsubstituted or substituted C 1-3 alkylene chain
• L 2 is an unsubstituted or substituted C 2-3 alkylene chain
• V 1 is —C(O)—, —C(S)—, —C(O)—CR A ⁇ CR A —, —C(O)—N(R 4a )—, —C(O)—O—, or —S(O) 2 —;
• V 2 is —N(R 4a )—, —N(R 4a )—C(O)—, —SO 2 —N(R 4a )—, —N(R 4a )—SO 2 —, —O—, —S—, —S(O)—,
• R 3 is unsubstituted or substituted C 1-6 aliphatic, unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur;
• each occurrence of R A is independently hydrogen, fluoro, or unsubstituted or substituted C 1-4 aliphatic;
• each occurrence of R 4a is independently hydrogen, or unsubstituted or substituted C 1-4 aliphatic;
• compounds of the invention may be optionally substituted with one or more substituents, such as are illustrated generally above, or as exemplified by particular classes, subclasses, and species of the invention.
• substituents such as are illustrated generally above, or as exemplified by particular classes, subclasses, and species of the invention.
• phrase “optionally substituted” is used interchangeably with the phrase “substituted or unsubstituted.”
• substituted whether preceded by the term “optionally” or not, means that a hydrogen radical of the designated moiety is replaced with the radical of a specified substituent, provided that the substitution results in a stable or chemically feasible compound.
• substituted when used in reference to a designated atom, means that attached to the atom is a hydrogen radical, which hydrogen atom can be replaced with the radical of a suitable substituent.
• an “optionally substituted” group may have a substituent at each substitutable position of the group, and when more than one position in any given structure may be substituted with more than one substituent selected from a specified group, the substituent may be either the same or different at every position.
• Combinations of substituents envisioned by this invention are preferably those that result in the formation of stable or chemically feasible compounds.
• a stable compound or chemically feasible compound is one in which the chemical structure is not substantially altered when kept at a temperature from about ⁇ 80° C. to about +40° C., in the absence of moisture or other chemically reactive conditions, for at least a week, or a compound which maintains its integrity long enough to be useful for therapeutic or prophylactic administration to a patient.
• one or more substituents refers to a number of substituents that equals from one to the maximum number of substituents possible based on the number of available bonding sites, provided that the above conditions of stability and chemical feasibility are met.
• the term “independently selected” means that the same or different values may be selected for multiple instances of a given variable in a single compound.
• aromatic includes aryl and heteroaryl groups as described generally below and herein.
• aliphatic or “aliphatic group”, as used herein, means an optionally substituted straight-chain or branched C 1-12 hydrocarbon.
• suitable aliphatic groups include optionally substituted linear, branched or cyclic alkyl, alkenyl, alkynyl groups and hybrids thereof. Unless otherwise specified, in various embodiments, aliphatic groups have 1-12, 1-10, 1-8, 1-6, 1-4, 1-3, or 1-2 carbon atoms.
• alkyl used alone or as part of a larger moiety, refers to an optionally substituted straight or branched chain hydrocarbon group having 1-12, 1-10, 1-8, 1-6, 1-4, 1-3, or 1-2 carbon atoms.
• alkenyl used alone or as part of a larger moiety, refers to an optionally substituted straight or branched chain hydrocarbon group having at least one double bond and having 2-12, 2-10, 2-8, 2-6, 2-4, or 2-3 carbon atoms.
• alkynyl used alone or as part of a larger moiety, refers to an optionally substituted straight or branched chain hydrocarbon group having at least one triple bond and having 2-12, 2-10, 2-8, 2-6, 2-4, or 2-3 carbon atoms.
• cycloaliphatic refers to an optionally substituted saturated or partially unsaturated cyclic aliphatic ring system having from 3 to about 14 ring carbon atoms.
• the cycloaliphatic group is an optionally substituted monocyclic hydrocarbon having 3-10, 3-8 or 3-6 ring carbon atoms.
• Cycloaliphatic groups include, without limitation, optionally substituted cyclopropyl, cyclobutyl, cyclopentyl, cyclopentenyl, cyclohexyl, cyclohexenyl, cycloheptyl, cycloheptenyl, cyclooctyl, cyclooctenyl, or cyclooctadienyl.
• cycloaliphatic also include optionally substituted bridged or fused bicyclic rings having 6-12, 6-10, or 6-8 ring carbon atoms, wherein any individual ring in the bicyclic system has 3-8 ring carbon atoms.
• cycloalkyl refers to an, optionally substituted saturated ring system of about 3 to about 10 ring carbon atoms.
• exemplary monocyclic cycloalkyl rings include cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl, and cycloheptyl.
• cycloalkenyl refers to an optionally substituted non-aromatic monocyclic or multicyclic ring system containing at least one carbon-carbon double bond and having about 3 to about 10 carbon atoms.
• exemplary monocyclic cycloalkenyl rings include cyclopentyl, cyclohexenyl, and cycloheptenyl.
• haloaliphatic refers to an aliphatic, alkyl, alkenyl or alkoxy group, as the case may be, which is substituted with one or more halogen atoms.
• halogen or “halo” means F, Cl, Br, or I.
• fluoroaliphatic refers to a haloaliphatic wherein the halogen is fluoro, including perfluorinated aliphatic groups.
• fluoroaliphatic groups include, without limitation, fluoromethyl, difluoromethyl, trifluoromethyl, 2-fluoroethyl, 2,2,2-trifluoroethyl, 1,1,2-trifluoroethyl, 1,2,2-trifluoroethyl, and pentafluoroethyl.
• heteroatom refers to one or more of oxygen, sulfur, nitrogen, phosphorus, or silicon (including, any oxidized form of nitrogen, sulfur, phosphorus, or silicon; the quaternized form of any basic nitrogen or; a substitutable nitrogen of a heterocyclic ring, for example N (as in 3,4-dihydro-2H-pyrrolyl), NH (as in pyrrolidinyl) or NR+ (as in N-substituted pyrrolidinyl)).
• aryl and “ar-”, used alone or as part of a larger moiety e.g., “aralkyl”, “aralkoxy”, or “aryloxyalkyl”, refer to an optionally substituted C 6-14 aromatic hydrocarbon moiety comprising one to three aromatic rings.
• the aryl group is a C 6-10 aryl group.
• Aryl groups include, without limitation, optionally substituted phenyl, naphthyl, or anthracenyl.
• aryl and “ar-”, as used herein, also include groups in which an aryl ring is fused to one or more cycloaliphatic rings to form an optionally substituted cyclic structure such as a tetrahydronaphthyl, indenyl, or indanyl ring.
• aryl may be used interchangeably with the terms “aryl group”, “aryl ring”, and “aromatic ring”.
• an “aralkyl” or “arylalkyl” group comprises an aryl group covalently attached to an alkyl group, either of which independently is optionally substituted.
• the aralkyl group is C 6-10 arylC 1-6 alkyl, including, without limitation, benzyl, phenethyl, and naphthylmethyl.
• heteroaryl and “heteroar-”, used alone or as part of a larger moiety, e.g., “heteroaralkyl”, or “heteroaralkoxy”, refer to groups having 5 to 14 ring atoms, preferably 5, 6, 9, or 10 ring atoms; having 6, 10, or 14 ⁇ electrons shared in a cyclic array; and having, in addition to carbon atoms, from one to five heteroatoms.
• the heteroaryl group has 5-10 ring atoms, having, in addition to carbon atoms, from one to five heteroatoms.
• a heteroaryl group may be mono-, bi-, tri-, or polycyclic, preferably mono-, bi-, or tricyclic, more preferably mono- or bicyclic.
• heteroatom refers to nitrogen, oxygen, or sulfur, and includes any oxidized form of nitrogen or sulfur, and any quaternized form of a basic nitrogen.
• a nitrogen atom of a heteroaryl may be a basic nitrogen atom and may also be optionally oxidized to the corresponding N-oxide.
• a heteroaryl is substituted by a hydroxy group, it also includes its corresponding tautomer.
• heteroaryl and “heteroar-”, as used herein, also include groups in which a heteroaromatic ring is fused to one or more aryl, cycloaliphatic, or heterocycloaliphatic rings.
• Nonlimiting examples of heteroaryl groups include thienyl, furanyl, pyrrolyl, imidazolyl, pyrazolyl, triazolyl, tetrazolyl, oxazolyl, isoxazolyl, oxadiazolyl, thiazolyl, isothiazolyl, thiadiazolyl, pyridyl, pyridazinyl, pyrimidinyl, pyrazinyl, indolizinyl, purinyl, naphthyridinyl, pteridinyl, indolyl, isoindolyl, benzothienyl, benzofuranyl, dibenzofuranyl, indazolyl, benz
• heteroaryl may be used interchangeably with the terms “heteroaryl ring”, “heteroaryl group”, or “heteroaromatic”, any of which terms include rings that are optionally substituted.
• heteroarylkyl refers to an alkyl group substituted by a heteroaryl, wherein the alkyl and heteroaryl portions independently are optionally substituted.
• heterocycle As used herein, the terms “heterocycle”, “heterocyclyl”, “heterocyclic radical”, and “heterocyclic ring” are used interchangeably and refer to a stable 4-10 membered ring, preferably a 3- to 8-membered monocyclic or 7-10-membered bicyclic heterocyclic moiety that is either saturated or partially unsaturated, and having, in addition to carbon atoms, one or more, preferably one to four, heteroatoms, as defined above.
• nitrogen includes a substituted nitrogen.
• the nitrogen may be N (as in 3,4-dihydro-2H-pyrrolyl), NH (as in pyrrolidinyl), or NR+ (as in N-substituted pyrrolidinyl).
• a heterocyclic ring can be attached to its pendant group at any heteroatom or carbon atom that results in a stable structure and any of the ring atoms can be optionally substituted.
• saturated or partially unsaturated heterocyclic radicals include, without limitation, tetrahydrofuranyl, tetrahydrothienyl, piperidinyl, decahydroquinolinyl, oxazolidinyl, piperazinyl, dioxanyl, dioxolanyl, diazepinyl, oxazepinyl, thiazepinyl, morpholinyl, and thiomorpholinyl.
• a heterocyclyl group may be mono-, bi-, tri-, or polycyclic, preferably mono-, bi-, or tricyclic, more preferably mono- or bicyclic.
• heterocyclylalkyl refers to an alkyl group substituted by a heterocyclyl, wherein the alkyl and heterocyclyl portions independently are optionally substituted.
• a heterocyclic ring also includes groups in which the heterocyclic ring is fused to one or more aryl rings.
• partially unsaturated refers to a ring moiety that includes at least one double or triple bond between ring atoms.
• the term “partially unsaturated” is intended to encompass rings having multiple sites of unsaturation, but is not intended to include aromatic (e.g., aryl or heteroaryl) moieties, as herein defined.
• alkylene refers to a bivalent alkyl group.
• An “alkylene chain” is a polymethylene group, i.e., —(CH 2 ) n′ —, wherein n′ is a positive integer, preferably from 1 to 6, from 1 to 4, from 1 to 3, from 1 to 2, or from 2 to 3.
• An optionally substituted alkylene chain is a polymethylene group in which one or more methylene hydrogen atoms is optionally replaced with a substituent. Suitable substituents include those described below for a substituted aliphatic group and also include those described in the specification herein. It will be appreciated that two substituents of the alkylene group may be taken together to form a ring system. In certain embodiments, two substituents can be taken together to form a 3-7-membered ring. The substituents can be on the same or different atoms.
• An alkylene chain also can be optionally interrupted by a functional group.
• An alkylene chain is “interrupted” by a functional group when an internal methylene unit is interrupted by the functional group. Examples of suitable “interrupting functional groups” are described in the specification and claims herein.
• aryl including aralkyl, aralkoxy, aryloxyalkyl and the like
• heteroaryl including heteroaralkyl and heteroarylalkoxy and the like
• suitable substituents on the unsaturated carbon atom of an aryl or heteroaryl group also include and are generally selected from -halo, —NO 2 , —CN, —R + , —C(R + ) ⁇ C(R + ) 2 , —C ⁇ C—R + , —OR + , —SR o , —S(O)R o , —SO 2 R o , —SO 3 R + , —SO 2 N(R + ) 2 , —N(R + ) 2 , —NR + C(O)R + , —NR + C(S)R + , —NR + C(O)N(R + ) 2 , —NR + C(S)N(R + ) 2 , —NR + C(S)N(R + ) 2 , —N(R + )C( ⁇ NR + )—N(R + ) 2 , —N(R + )C( ⁇
• An aliphatic or heteroaliphatic group, or a non-aromatic carbycyclic or heterocyclic ring may contain one or more substituents and thus may be “optionally substituted”.
• suitable substituents on the saturated carbon of an aliphatic or heteroaliphatic group, or of a non-aromatic carbocyclic or heterocyclic ring are selected from those listed above for the unsaturated carbon of an aryl or heteroaryl group and additionally include the following: ⁇ O, ⁇ S, ⁇ C(R*) 2 , ⁇ N—N(R*) 2 , ⁇ N—OR*, ⁇ N—NHC(O)R*, ⁇ N—NHCO 2 R o ⁇ N—NHSO 2 R o or ⁇ N—R* where R o is defined above, and each R* is independently selected from hydrogen or an optionally substituted C 1-6 aliphatic group.
• optional substituents on the nitrogen of a non-aromatic heterocyclic ring also include and are generally selected from —R + , —N(R + ) 2 , —C(O)R + , —C(O)OR + , —C(O)C(O)R + , —C(O)CH 2 C(O)R + , —S(O) 2 R + , —S(O) 2 N(R + ) 2 , —C(S)N(R + ) 2 , —C( ⁇ NH)—N(R + ) 2 , or —N(R + )S(O) 2 R + ; wherein each R + is defined above.
• a ring nitrogen atom of a heteroaryl or non-aromatic heterocyclic ring also may be oxidized to form the corresponding N-hydroxy or N-oxide compound.
• a nonlimiting example of such a heteroaryl having an oxidized ring nitrogen atom is N-oxidopyridyl.
• two independent occurrences of R + are taken together with their intervening atom(s) to form a monocyclic or bicyclic ring selected from 3-13-membered cycloaliphatic, 3-12-membered heterocyclyl having 1-5 heteroatoms independently selected from nitrogen, oxygen, or sulfur, 6-10-membered aryl, or 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, or sulfur.
• Exemplary rings that are formed when two independent occurrences of R + (or any other variable similarly defined in the specification and claims herein), are taken together with their intervening atom(s) include, but are not limited to the following: a) two independent occurrences of R + (or any other variable similarly defined in the specification or claims herein) that are bound to the same atom and are taken together with that atom to form a ring, for example, N(R + ) 2 , where both occurrences of R + are taken together with the nitrogen atom to form a piperidin-1-yl, piperazin-1-yl, or morpholin-4-yl group; and b) two independent occurrences of R + (or any other variable similarly defined in the specification or claims herein) that are bound to different atoms and are taken together with both of those atoms to form a ring, for example where a phenyl group is substituted with two occurrences of OR +
• structures depicted herein are also meant to include all isomeric (e.g., enantiomeric, diastereomeric, and geometric (or conformational)) forms of the structure; for example, the R and S configurations for each asymmetric center, (Z) and (E) double bond isomers, and (Z) and (E) conformational isomers. Therefore, single stereochemical isomers as well as enantiomeric, diastereomeric, and geometric (or conformational) mixtures of the present Compounds are within the scope of the invention. Unless otherwise stated, all tautomeric forms of the compounds of the invention are within the scope of the invention.
• structures depicted herein are also meant to include compounds that differ only in the presence of one or more isotopically enriched atoms.
• compounds having the present structures except for the replacement of hydrogen by deuterium or tritium, or the replacement of a carbon by a 13C— or 14C-enriched carbon are within the scope of this invention.
• Such compounds are useful, for example, as analytical tools or probes in biological assays.
• stereoisomer is used herein in accordance with the meaning each is given in ordinary usage by those of ordinary skill in the art.
• stereoisomers are compounds that have the same atomic connectivity, but differ in the spatial arrangement of the atoms.
• Enantiomers are stereoisomers that have a mirror image relationship, that is, the stereochemical configuration at all corresponding chiral centers is opposite.
• Diastereomers are stereoisomers having more than one chiral center, which differ from one another in that the stereochemical configuration of at least one, but not all, of the corresponding chiral centers is opposite.
• Epimers are diastereomers that differ in stereochemical configuration at only one chiral center.
• the present invention encompasses one enantiomer of the compound, substantially free from the corresponding optical isomer, a racemic mixture of both optical isomers of the compound, and mixtures enriched in one enantiomer relative to its corresponding optical isomer.
• the mixture contains, for example, an enantiomeric excess of at least 50%, 75%, 90%, 95%, 99%, or 99.5%.
• the enantiomers of the present invention may be resolved by methods known to those skilled in the art, for example by formation of diastereoisomeric salts which may be separated, for example, by crystallization; formation of diastereoisomeric derivatives or complexes which may be separated, for example, by crystallization, gas-liquid or liquid chromatography; selective reaction of one enantiomer with an enantiomer-specific reagent, for example enzymatic esterification; or gas-liquid or liquid chromatography in a chiral environment, for example on a chiral support for example silica with a bound chiral ligand or in the presence of a chiral solvent.
• enantiomers may be synthesized by asymmetric synthesis using optically active reagents, substrates, catalysts or solvents, or by converting one enantiomer into the other by asymmetric transformation.
• the present invention encompasses a diastereomer substantially free of other diastereomers, an enantiomeric pair of diastereomers substantially free of other stereoisomers, mixtures of diastereomers, mixtures of enantiomeric pairs of diastereomers, mixtures of diastereomers in which one diastereomer is enriched relative to the other diastereomer(s), and mixtures of enantiomeric pairs of diastereomers in which one enantiomeric pair of diastereomers is enriched relative to the other stereoisomers.
• the mixture is enriched in one diastereomer or enantiomeric pair of diastereomers pairs relative to the other stereoisomers, the mixture is enriched with the depicted or referenced diastereomer or enantiomeric pair of diastereomers relative to other stereoisomers for the compound, for example, by a molar excess of at least 50%, 75%, 90%, 95%, 99%, or 99.5%.
• the term “diastereomeric ratio” refers to the ratio between diastereomers which differ in the stereochemical configuration at one chiral center, relative to a second chiral center in the same molecule.
• a chemical structure with two chiral centers provides four possible stereoisomers: R*R, R*S, S*R, and S*S, wherein the asterisk denotes the corresponding chiral center in each stereoisomer.
• the diastereomeric ratio for such a mixture of stereoisomers is the ratio of one diastereomer and its enantiomer to the other diastereomer and its enantiomer ⁇ (R*R+S*S):(R*S+S*R).
• the term “diastereomeric ratio” has identical meaning in reference to compounds with multiple chiral centers as it does in reference to compounds having two chiral centers.
• the term “diastereomeric ratio” refers to the ratio of all compounds having R*R or S*S configuration at the specified chiral centers to all compounds having R*S or S*R configuration at the specified chiral centers. For convenience, this ratio is referred to herein as the diastereomeric ratio at the asterisked carbon, relative to the second specified chiral center.
• the diastereomeric ratio can be measured by any analytical method suitable for distinguishing between diastereomeric compounds having different relative stereochemical configurations at the specified chiral centers.
• analytical methods include, without limitation, nuclear magnetic resonance (NMR), gas chromatography (GC), and high performance liquid chromatography (HPLC) methods.
• the diastereoisomeric pairs may be separated by methods known to those skilled in the art, for example chromatography or crystallization and the individual enantiomers within each pair may be separated as described above. Specific procedures for chromatographically separating diastereomeric pairs of precursors used in the preparation of compounds disclosed herein are provided the examples herein.
• the compound of formula (I) is represented by:
• R 1a , R 1b , R 1c , R 1d , and G have the values described herein.
• the compound of formula (I) is represented by formulas (I-a), (I-b), (I-c), or (I-l), wherein R 1a , R 1b , R 1c , R 1d , and G have the values described herein.
• the compound of formula (I) is represented by formula (II-i):
• the compound of formula (II-i) is represented by:
• the compound of formula (II-i) is represented by formulas (II-i-a), (II-i-b), or (II-i-c), wherein G has the values described herein.
• the compound of formula (I) is represented by formula (II-ii):
• the compound of formula (II-ii) is represented by:
• the compound of formula (II-ii) is represented by formula (II-ii-b) wherein G has the values described herein.
• the compound of formula (I) is represented by formula (III-a), (III-b), or (III-c):
• X 1 , X 2 , R 1a , R 1b , R 1c , R 1d , n, and R 3 have the values described herein.
• the compound of formula (I) is represented by formula (IV-a), (IV-b), or (IV-c):
• the compound of formula (IV) is represented by formula (IV-a) wherein X 1 , X 2 , n, and R 3 have the values described herein.
• the compound of formula (IV) is represented by formula (IV-b) wherein X 1 , X 2 , n, and R 3 have the values described herein.
• the compound of formula (IV) is represented by formula (IV-c) wherein X 1 , X 2 , n, and R 3 have the values described herein.
• the variable X 1 is CH or N.
• the variable X 2 is CH or N. In some embodiments, at least one of X 1 and X 2 is CH. In certain embodiments, X 1 is CH and X 2 is CH. In certain embodiments, X 1 is CH and X 2 is N. In certain embodiments, X 1 is N and X 2 is CH. In certain embodiments, X 1 is N and X 2 is N.
• R 1a is hydrogen, fluoro, C 1-4 alkyl, or C 1-3 fluoroalkyl. In some embodiments, R 1a is hydrogen, fluoro, or methyl. In certain embodiments, R 1a is hydrogen or methyl. In certain embodiments, R 1a is hydrogen.
• R 1b is hydrogen, fluoro, C 1-4 alkyl, or C 1-3 fluoroalkyl. In some embodiments, R 1b is hydrogen, fluoro, trifluoromethyl, methyl, ethyl, isopropyl, n-propyl, or tert-butyl. In certain embodiments, R 1b is hydrogen, fluoro, or methyl. In certain embodiments, R 1b is hydrogen.
• R 1a and R 1b are taken together to form an oxo group.
• each occurrence of the variable R 1c is independently hydrogen, fluoro, C 1-4 alkyl, or C 1-3 fluoroalkyl. In some embodiments, each occurrence of R 1c is independently hydrogen, fluoro, or methyl. In certain embodiments, each occurrence of R 1c is independently hydrogen or methyl. In certain embodiments, R 1c is hydrogen.
• each occurrence of the variable R 1d is independently hydrogen, fluoro, C 1-4 alkyl, or C 1-3 fluoroalkyl. In some embodiments, each occurrence of R 1d is independently hydrogen, fluoro, trifluoromethyl, methyl, ethyl, isopropyl, n-propyl, or tert-butyl. In certain embodiments, each occurrence of R 1d is independently hydrogen, fluoro, or methyl. In certain embodiments, R 1d is hydrogen.
• n is 1-2. In some embodiments, n is 1.
• variable G is —R 3 , —V 1 —R 3 , —V 1 -L 1 -R 3 , -L 2 -V 1 —R 3 , -L 2 -V 2 —R 3 , or -L 1 -R 3 , wherein L 1 , L 2 , V 1 , V 2 , and R 3 have the values described herein.
• G is —V 1 —R 3 , or —V 1 -L 1 -R 3 , wherein L 1 , V 1 , and R 3 have the values described herein.
• G is —V 1 —R 3 , wherein V 1 , and R 3 have the values described herein.
• G is —R 3 , or -L 1 -R 3 , wherein L 1 , and R 3 have the values described herein. In some such embodiments, G is —R 3 , wherein R 3 has the values described herein.
• L 1 is an unsubstituted or substituted C 1-3 alkylene chain.
• L 1 is —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• L 1 is —CH 2 —.
• variable L 2 is an unsubstituted or substituted C 2-3 alkylene chain.
• L 2 is —CH 2 CH 2 — or —CH 2 CH 2 CH 2 —.
• V 1 is —C(O)—, —C(S)—, —C(O)—CR A ⁇ CR A —, —C(O)—N(R 4a )—, —C(O)—O—, or —S(O) 2 —, wherein R A and R 4a have the values described herein.
• V 1 is —C(O)—, —C(O)—N(R 4a )—, or —S(O) 2 —, wherein R 4a has the values described herein.
• V 1 is —C(O)—, —C(O)—NH—, or —S(O) 2 —.
• V 1 is —C(O)—.
• each occurrence of the variable R A is independently hydrogen, halo, or an optionally substituted C 1-4 aliphatic group. In some embodiments, each occurrence of R A is independently hydrogen, fluoro or methyl. In certain embodiments, R A is hydrogen.
• variable R 4a is independently hydrogen, or unsubstituted or substituted C 1-4 aliphatic. In certain embodiments, R 4a is hydrogen.
• variable V 2 is —N(R 4a )—, —N(R 4a )—C(O)—, —SO 2 —N(R 4a )—, —N(R 4a )—SO 2 —, —O—, —S—, —S(O)—, —N(R 4a )—C(O)—N(R 4a )—, —N(R 4a )—C(O)—O—, —O—C(O)—N(R 4a )—, or —N(R 4a )—SO 2 —N(R 4a )—, wherein R 4a has the values described herein.
• V 2 is —NR 4a )—, —NR 4a —C(O)—, —SO 2 —N(R 4a )—, —N(R 4a )—SO 2 —, —O—, or —S—, wherein R 4a has the values described herein.
• V 2 is —N(R 4a )—, —O—, or —S—, wherein R 4a has the values described herein.
• V 2 is —NH—, or —O—.
• variable R 3 is unsubstituted or substituted C 1-6 aliphatic, unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur.
• R 3 is unsubstituted or substituted C 1-6 aliphatic, unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur; wherein:
• R 3 is unsubstituted or substituted C 1-6 aliphatic, unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur; wherein
• R 3 is unsubstituted or substituted C 1-6 aliphatic, unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur; wherein:
• each occurrence of R 5dd is independently fluoro, hydroxy, —O(C 1-3 alkyl), cyano, —N(R 4 ) 2 , —C(O)(C 1-3 alkyl), —CO 2 H, —C(O)NH 2 , —N—C(O)—(C 1-3 alkyl), —N—C(O)—O—(C 1-3 alkyl), or —C(O)NH(C 1-3 alkyl).
• each occurrence of R 5dd is independently fluoro, hydroxy, methoxy, ethoxy, or —C(O)NHCH 3 .
• Each R 4 is independently hydrogen, unsubstituted or substituted C 1-6 aliphatic, unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur; or two R 4 on the same nitrogen atom, taken together with the nitrogen atom, form an unsubstituted or substituted 5- to 6-membered heteroaryl or an unsubstituted or substituted 4- to 8-membered heterocyclyl having, in addition to the nitrogen atom, 0-2 ring heteroatoms selected from nitrogen, oxygen, and sulfur.
• Each R 5 is independently hydrogen, unsubstituted or substituted C 1-6 aliphatic, unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur.
• Each R 6 is independently unsubstituted or substituted C 1-6 aliphatic, or unsubstituted or substituted 6-10-membered aryl.
• Each R 9b is independently —C(O)R 5 , —C(O)N(R 4 ) 2 , —CO 2 R 6 , —SO 2 R 6 , —SO 2 N(R 4 ) 2 , unsubstituted C 1-4 aliphatic, or C 1-4 aliphatic substituted with 1-2 independent occurrences of R 7 or R 8 , wherein R 7 and R 8 have the values described herein.
• each R 9b is independently unsubstituted —C(O)—C 1-4 aliphatic, unsubstituted —C(O)—C 3-10 cycloaliphatic, or unsubstituted C 1-4 aliphatic.
• each R 9b is independently methyl, ethyl, isopropyl, isobutyl, n-propyl, n-butyl, tert-butyl, —C(O)-methyl, —C(O)-ethyl, —C(O)-cyclopropyl, or —C(O)-cyclobutyl.
• Each R 7 is independently unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur.
• Each R 8 is independently halogen, —OH, —O(C 1-3 alkyl), —CN, —N(R 4 ) 2 , —C(O)(C 1-3 alkyl), —CO 2 H, —CO 2 (C 1-3 alkyl), —C(O)NH 2 , or —C(O)NH(C 1-3 alkyl), wherein R 4 has the values described herein.
• Each R 5a is independently halogen, —NO 2 , —CN, —C(R 5 ) ⁇ C(R) 2 , —C ⁇ C—R 5 , —OR 5 , —SR 6 , —S(O)R 6 , —SO 2 R 6 , —SO 2 N(R 4 ) 2 , —N(R 4 ) 2 , —NR 4 C(O)R 5 , —NR 4 C(O)N(R 4 ) 2 , —NR 4 CO 2 R 6 , —OC(O)N(R 4 ) 2 , —C(O)R 5 , —C(O)N(R 4 ) 2 , —C( ⁇ NR 4 )—N(R 4 ) 2 , —C( ⁇ NR 4 )—OR 5 , —N(R 4 )—N(R 4 ) 2 , —N(R 4 )C( ⁇ NR 4 )—N(R 4 ) 2
• each R 5a is independently halogen, cyano, hydroxy, C 1-4 alkyl, C 1-3 fluoroalkyl, —O—C 1-3 alkyl, —O—C 1-3 fluoroalkyl, —NHC(O)C 1-3 alkyl, —C(O)NHC 1-3 alkyl, —NHC(O)NHC 1-3 alkyl, —NHS(O) 2 C 1-3 alkyl, —NHC 1-3 alkyl, —N(C 1-3 alkyl) 2 , 3-10-membered cycloaliphatic substituted with 0-2 occurrences of —R 7a , 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur substituted with 0-2 occurrences of —R 7a , 6-10-membered aryl substituted with 0-2 occurrences of —R 7a , or 5-10-membered heteroaryl having 1
• each R 5a is independently chloro, fluoro, hydroxy, methoxy, ethoxy, n-propoxy, isopropoxy, cyano, trifluoromethyl, methyl, ethyl, isopropyl, isobutyl, n-propyl, tert-butyl or phenyl.
• variable R 7a is independently halogen, C 1-4 alkyl, C 1-3 fluoroalkyl, —O—C 1-3 alkyl, —O—C 1-3 fluoroalkyl, cyano, hydroxy, —NHC(O)C 1-3 alkyl, —NHC 1-3 alkyl, —N(C 1-3 alkyl) 2 , —C(O)NHC 1-3 alkyl, —NHC(O)NHC 1-3 alkyl, or —NHS(O) 2 C 1-3 alkyl.
• variable p is 1-2. In some embodiments, p is 1.
• R 3 is unsubstituted or substituted C 1-6 aliphatic. In certain embodiments, each substitutable carbon chain atom in R 3 is unsubstituted or substituted with 1-2 occurrences of —R 5dd , wherein R 5dd has the values described herein. In certain embodiments, R 3 is methyl, ethyl, n-propyl, isopropyl, tert-butyl, n-butyl, iso-butyl, pentyl, hexyl, butenyl, propenyl, pentenyl, or hexenyl, wherein each of the forementioned groups is unsubstituted or substituted.
• R 3 is methyl, ethyl, n-propyl, isopropyl, tert-butyl, n-butyl, iso-butyl, pentyl, hexyl, butenyl, propenyl, pentenyl, or hexenyl, wherein each substitutable carbon chain atom in R 3 is unsubstituted or substituted with 1-2 occurrences of —R 5dd , wherein R 5dd has the values described herein.
• R 3 is unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur.
• R 3 is unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur, wherein:
• each substitutable saturated ring carbon atom in R 3 is unsubstituted or substituted with ⁇ O, ⁇ S, ⁇ C(R 5 ) 2 , ⁇ N—N(R 4 ) 2 , ⁇ N—OR 5 , ⁇ N—NHC(O)R 5 , ⁇ N—NHCO 2 R 6 , ⁇ N—NHSO 2 R 6 , ⁇ N—R 5 or —R 5a ;
• each substitutable unsaturated ring carbon atom in R 3 is unsubstituted or is substituted with —R 5a ;
• each substitutable ring nitrogen atom in R 3 is unsubstituted or substituted with —R 9b ;
• R 4 , R 5 , R 6 , R 5a , and R 9b have the values described herein.
• R 3 is unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur, wherein:
• each substitutable saturated ring carbon atom in R 3 is unsubstituted or substituted with ⁇ O, ⁇ S, ⁇ C(R 5 ) 2 , ⁇ N—R 5 or —R 5a ;
• each substitutable unsaturated ring carbon atom in R 3 is unsubstituted or is substituted with —R 5a ;
• each substitutable ring nitrogen atom in R 3 is unsubstituted or substituted with —R 9b ;
• R 5 , R 5a , and R 9b have the values described herein.
• R 3 is unsubstituted or substituted 3-10-membered cycloaliphatic, unsubstituted or substituted 4-10-membered heterocyclyl having 1-4 heteroatoms independently selected from nitrogen, oxygen, and sulfur, unsubstituted or substituted 6-10-membered aryl, or unsubstituted or substituted 5-10-membered heteroaryl having 1-5 heteroatoms independently selected from nitrogen, oxygen, and sulfur, wherein:
• R 3 is furanyl, thienyl, pyrrolyl, oxazolyl, thiazolyl, imidazolyl, pyrazolyl, isoxazolyl, isothiazolyl, oxadiazolyl, triazolyl, thiadiazolyl, phenyl, naphthyl, pyranyl, pyridyl, pyridazinyl, pyrimidinyl, pyrazinyl, triazinyl, indolizinyl, imidazopyridyl, indolyl, isoindolyl, indazolyl, benzimidazolyl, benzthiazolyl, benzothienyl, benzofuranyl, benzoxazolyl, benzodioxolyl, benzthiadiazolyl, 2,3-dihydrobenzofuranyl, 4H-furo[3,2-b]pyrrolyl, pyra
• each substitutable saturated ring carbon atom in R 3 is unsubstituted or substituted with ⁇ O, ⁇ S, ⁇ C(R 5 ) 2 , ⁇ N—N(R 4 ) 2 , ⁇ N—OR 5 , ⁇ N—NHC(O)R 5 , ⁇ N—NHCO 2 R 6 , ⁇ N—NHSO 2 R 6 , ⁇ N—R 5 or —R 5a ;
• each substitutable unsaturated ring carbon atom in R 3 is unsubstituted or is substituted with —R 5a ;
• each substitutable ring nitrogen atom in R 3 is unsubstituted or substituted with —R 9b ;
• R 4 , R 5 , R 6 , R 5a , and R 9b have the values described herein.
• R 3 is furanyl, thienyl, pyrrolyl, oxazolyl, thiazolyl, imidazolyl, pyrazolyl, isoxazolyl, isothiazolyl, oxadiazolyl, triazolyl, thiadiazolyl, phenyl, naphthyl, pyranyl, pyridyl, pyridazinyl, pyrimidinyl, pyrazinyl, triazinyl, indolizinyl, imidazopyridyl, indolyl, isoindolyl, indazolyl, benzimidazolyl, benzthiazolyl, benzothienyl, benzofuranyl, benzoxazolyl, benzodioxolyl, benzthiadiazolyl, 2,3-dihydrobenzofuranyl, 4H-furo[3,2-b]pyrrolyl, pyra
• each substitutable saturated ring carbon atom in R 3 is unsubstituted or substituted with ⁇ O, ⁇ S, ⁇ C(R 5 ) 2 , ⁇ N—R 5 or —R 5a ;
• each substitutable unsaturated ring carbon atom in R 3 is unsubstituted or is substituted with —R 5a ;
• each substitutable ring nitrogen atom in R 3 is unsubstituted or substituted with —R 9b ;
• R 5a and R 9b have the values described herein.
• R 3 is furanyl, thienyl, pyrrolyl, oxazolyl, thiazolyl, imidazolyl, pyrazolyl, isoxazolyl, isothiazolyl, oxadiazolyl, triazolyl, thiadiazolyl, phenyl, naphthyl, pyranyl, pyridyl, pyridazinyl, pyrimidinyl, pyrazinyl, triazinyl, indolizinyl, imidazopyridyl, indolyl, isoindolyl, indazolyl, benzimidazolyl, benzthiazolyl, benzothienyl, benzofuranyl, benzoxazolyl, benzodioxolyl, benzthiadiazolyl, 2,3-dihydrobenzofuranyl, 4H-furo[3,2-b]pyrrolyl, pyra
• R 3 is furanyl, thienyl, pyrrolyl, oxazolyl, thiazolyl, imidazolyl, pyrazolyl, isoxazolyl, isothiazolyl, oxadiazolyl, triazolyl, thiadiazolyl, phenyl, pyranyl, pyridyl, pyridazinyl, pyrimidinyl, pyrazinyl, or triazinyl, wherein:
• each substitutable unsaturated ring carbon atom in R 3 is unsubstituted or is substituted with 1-2 occurrences of —R 5a ;
• each R 5a is independently chloro, fluoro, hydroxy, methoxy, ethoxy, n-propoxy, isopropoxy, cyano, trifluoromethyl, methyl, ethyl, isopropyl, isobutyl, n-propyl, tert-butyl or phenyl;
• each substitutable ring nitrogen atom in R 3 is unsubstituted or substituted with —R 9b ;
• each R 9b is independently methyl, ethyl, isopropyl, isobutyl, n-propyl, n-butyl, tert-butyl, —C(O)-methyl, —C(O)-ethyl, —C(O)-cyclopropyl, or —C(O)-cyclobutyl.
• R 3 is indolizinyl, imidazopyridyl, indolyl, indazolyl, benzimidazolyl, benzthiazolyl, benzothienyl, benzofuranyl, benzoxazolyl, benzthiadiazolyl, pyrazolopyrimidinyl, purinyl, quinolyl, isoquinolyl, cinnolinyl, phthalazinyl, quinazolinyl, quinoxalinyl, naphthyridinyl, naphthyl, or pteridinyl; wherein:
• each substitutable unsaturated ring carbon atom in R 3 is unsubstituted or is substituted with 1-2 occurrences of —R 5a ;
• each R 5a is independently chloro, fluoro, hydroxy, methoxy, ethoxy, n-propoxy, isopropoxy, cyano, trifluoromethyl, methyl, ethyl, isopropyl, isobutyl, n-propyl, tert-butyl or phenyl;
• each substitutable ring nitrogen atom in R 3 is unsubstituted or substituted with —R 9b ;
• each R 9b is independently methyl, ethyl, isopropyl, isobutyl, n-propyl, n-butyl, tert-butyl, —C(O)-methyl, —C(O)-ethyl, —C(O)-cyclopropyl, or —C(O)-cyclobutyl.
• R 3 is tetrahydrofuranyl, tetrahydropyranyl, tetrahydrothienyl, pyrrolidinyl, pyrrolidonyl, piperidinyl, pyrrolinyl, oxazolidinyl, piperazinyl, dioxanyl, diazepinyl, oxazepinyl, thiazepinyl, morpholinyl, thiomorpholinyl, cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl, cycloheptyl, cyclooctyl, cyclopentenyl, cyclohexenyl, cycloheptenyl, or cyclooctenyl; wherein:
• R 3 is tetrahydroindazolyl, bicycloheptanyl, bicyclooctanyl, adamantyl, isoindolyl, benzodioxolyl, 2,3-dihydrobenzofuranyl, 4H-furo[3,2-b]pyrrolyl, quinuclidinyl, tetrahydroquinolinyl, tetrahydroisoquinolinyl, decahydroquinolinyl, tetrahydronaphthyl, indolinyl, benzodioxanyl, chromanyl, tetrahydroindazolyl, or indanyl; wherein:
• each R 9b is independently methyl, ethyl, isopropyl, isobutyl, n-propyl, n-butyl, tert-butyl, —C(O)-methyl, —C(O)-ethyl, —C(O)-cyclopropyl, or —C(O)-cyclobutyl.
• G is:
• G is:
• Ring C has the values described herein.
• variable X is —C(O)— or -L 2a -R 3aa —V 2a —, wherein L 2a , R 3aa , and V 2a have the values described herein.
• X is —C(O)—.
• X is -L 2a -R 3aa —V 2a —, wherein L 2a , R 3aa , and V 2a have the values described herein.
• X is —C(O)—,
• V 2a and t have the values described herein.
• X is —C(O)—
• X is —C(O)—, X-ii, X-xi, X-xii, X-xxii, X-xxiv, or X-xxv.
• Ring C is a 4-7 membered heterocyclic ring containing one nitrogen atom, wherein the nitrogen atom is not the atom bound to X, and wherein the nitrogen atom in Ring C is substituted with R 9bb and Ring C is unsubstituted or substituted by 1-4 occurrences of R 5b ; wherein R 9bb , X, and R 5b have the values described herein.
• Ring C is a 4-7 membered heterocyclic ring containing one nitrogen atom, wherein the nitrogen atom is not the atom bound to X, and wherein the nitrogen atom in Ring C is substituted with R 9bb and Ring C is unsubstituted or substituted by 1-2 occurrences of R 5b ; wherein R 9bb , X, and R 5b have the values described herein.
• Ring C is:
• Ring C is unsubstituted or substituted with 1 occurrence of R 5b , wherein R 9bb and R 5b have the values described herein.
• Ring C is:
• R 9bb , z and R 5bb have the values described herein.
• variable V 2a is a bond, —NH—C(O)—, —NH—S(O) 2 —, or —NH—C(O)—NH—.
• V 2a is a bond or —NH—C(O)—.
• V 2a is a bond.
• V 2a is —NH—C(O)—.
• variable t is 0-2. In some embodiments, t is 0-1. In certain embodiments, t is 0. In certain embodiments, t is 1. In certain embodiments, t is 2.
• variable L 2a is a bond or unsubstituted or substituted C 1-3 alkylene chain.
• L 2a is a bond, —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• L 2a is a bond.
• L 2a is —CH 2 —.
• L 2a is —CH 2 CH 2 —.
• R 3aa is a 6-membered aromatic ring containing 0-2 nitrogen atoms which is unsubstituted or substituted with 1-2 independent occurrences of R 4c , wherein R 4c has the values described herein.
• R 3aa is phenyl or pyridyl, each of which is unsubstituted or substituted with 1-2 independent occurrences of R 4c , wherein R 4c has the values described herein.
• R 3aa is:
• each ring is unsubstituted or substituted with 1-2 independent occurrences of R 4c .
• variable R 4c is chloro, fluoro, cyano, hydroxy, methoxy, ethoxy, trifluoromethoxy, trifluoromethyl, methyl, or ethyl. In some embodiments, R 4c is chloro, fluoro, methyl or ethyl.
• variable z is 0-1. In some embodiments, z is 0. In some embodiments, z is 1.
• Each occurrence of the variable R 5b is independently chloro, fluoro, hydroxy, methyl, ethyl, methoxy, ethoxy, trifluoromethyl, trifluoromethoxy, —C(O)NH 2 , or —CO 2 H. In some embodiments, each occurrence of the variable R 5b is independently chloro, fluoro, hydroxy, methyl, or ethyl. In certain embodiments, each occurrence of the variable R 5b is methyl.
• R 5bb is hydrogen or methyl. In some embodiments, R 5bb is hydrogen. In some embodiments, R 5bb is methyl.
• R 9bb is hydrogen, unsubstituted C(O)—O—C 1-6 aliphatic, unsubstituted C(O)—C 1-5 aliphatic, unsubstituted C(O)—C 3-10 cycloaliphatic, or unsubstituted C 1-6 aliphatic.
• R 9bb is hydrogen, methyl, ethyl, isopropyl, or tert-butoxycarbonyl.
• R 9bb is methyl, ethyl, or isopropyl.
• R 9bb is hydrogen.
• the compound of formula (I) is represented by:
• R 1a is hydrogen, fluoro, or methyl
• R 1b is hydrogen, fluoro, trifluoromethyl, methyl, ethyl, isopropyl, n-propyl, or tert-butyl; or R 1a and R 1b are taken together to form an oxo group;
• each occurrence of R 1c is independently hydrogen, fluoro, or methyl
• each occurrence of R 1d is independently hydrogen, fluoro, trifluoromethyl, methyl, ethyl, isopropyl, n-propyl, or tert-butyl;
• G is —V 1 —R 3 , or —V 1 -L 1 -R 3 ;
• V 1 is —C(O)—
• L 1 is —CH 2 —
• R 1a is hydrogen
• R 1b is hydrogen, fluoro, or methyl
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• R 3 has the values described herein.
• G is —R 3 , or -L 1 -R 3 ;
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• L 1 and R 3 have the values described herein.
• the compound of formula (I) is represented by:
• R 1a is hydrogen, fluoro, or methyl
• R 1b is hydrogen, fluoro, trifluoromethyl, methyl, ethyl, isopropyl, n-propyl, or tert-butyl; or R 1a and R 1b are taken together to form an oxo group;
• each occurrence of R 1c is independently hydrogen, fluoro, or methyl
• each occurrence of R 1d is independently hydrogen, fluoro, trifluoromethyl, methyl, ethyl, isopropyl, n-propyl, or tert-butyl;
• G is —V 1 —R 3 , or —V 1 -L 1 -R 3 ;
• V 1 is —C(O)—
• L 1 is —CH 2 —
• R 1a is hydrogen
• R 1b is hydrogen, fluoro, or methyl
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• R 3 has the values described herein.
• G is —R 3 , or -L 1 -R 3 ;
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• L 1 and R 3 have the values described herein.
• the compound of formula (I) is represented by:
• R 1a is hydrogen, fluoro, or methyl
• R 1b is hydrogen, fluoro, trifluoromethyl, methyl, ethyl, isopropyl, n-propyl, or tert-butyl; or R 1a and R 1b are taken together to form an oxo group;
• each occurrence of R 1c is independently hydrogen, fluoro, or methyl
• each occurrence of R 1d is independently hydrogen, fluoro, trifluoromethyl, methyl, ethyl, isopropyl, n-propyl, or tert-butyl;
• G is —V 1 —R 3 , or —V 1 -L 1 -R 3 ;
• V 1 is —C(O)—
• L 1 is —CH 2 —
• R 1a is hydrogen
• R 1b is hydrogen, fluoro, or methyl
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• R 3 has the values described herein.
• G is —R 3 , or -L 1 -R 3 ;
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• L 1 and R 3 have the values described herein.
• the compound of formula (I) is represented by:
• X 1 is CH or N
• X 2 is CH or N
• n 1-2;
• R 1a is hydrogen
• R 1b is hydrogen, fluoro, or methyl
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• Ring C and X have the values described herein.
• n 1;
• R 1b is hydrogen
• R 1d is hydrogen
• the compound of formula (I) is represented by:
• X 1 is CH or N
• X 2 is CH or N
• n 1-2;
• R 9bb is hydrogen, methyl, ethyl, isopropyl, or tert-butoxycarbonyl
• X is —C(O)—, X-a, X-b, X-c, X-d, X-e, X-f, or X-g;
• Ring C is unsubstituted or substituted with one occurrence of R 5b ;
• n 1;
• R 5b is methyl
• the compound of formula (I) is represented by:
• R 1a is hydrogen
• R 1b is hydrogen, fluoro, or methyl
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• R 9bb is hydrogen, methyl, ethyl, isopropyl, or tert-butoxycarbonyl
• X is —C(O)—, X-ii, X-xi, X-xii, X-xxiv, or X-xxv;
• R 5bb is hydrogen or methyl
• z has the values described herein.
• R 1b is hydrogen
• R 1d K is hydrogen
• R 5bb is methyl
• the compound of formula (I) is represented by:
• R 1a is hydrogen
• R 1b is hydrogen, fluoro, or methyl
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• R 9bb is hydrogen, methyl, ethyl, isopropyl, or tert-butoxycarbonyl
• X is —C(O)—, X-ii, X-xi, X-xii, X-xxii, X-xxiv, or X-xxv;
• R 5bb is hydrogen or methyl
• z has the values described herein.
• R 1b is hydrogen
• R 1d is hydrogen
• R 5bb is methyl
• the compound of formula (I) is represented by:
• R 1a is hydrogen
• R 1b is hydrogen, fluoro, or methyl
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• R 9bb is hydrogen, methyl, ethyl, isopropyl, or tert-butoxycarbonyl
• X is —C(O)—, X-ii, X-xi, X-xii, X-xxii, X-xxiv, or X-xxv;
• R 5bb is hydrogen or methyl
• z has the values described herein.
• R 1b is hydrogen
• R 1d is hydrogen
• R 5bb is methyl
• the compound of formula (I) is represented by:
• G is —V 1 —R 3 , or —V 1 -L 1 -R 3 ;
• V 1 is —C(O)—
• L 1 is —CH 2 —
• R 1a is hydrogen
• R 1b is hydrogen, fluoro, or methyl
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• R 3 has the values described herein.
• the compound of formula (I) is represented by formula (I-a). In certain such embodiments, the compound of formula (I) is represented by formula (I-b). In certain such embodiments, the compound of formula (I) is represented by formula (I-c). In certain such embodiments, the compound of formula (I) is represented by formula (I-d). In certain such embodiments, the compound of formula (I) is represented by formula (I-e). In certain such embodiments, the compound of formula (I) is represented by formula (I-f). In certain such embodiments, the compound of formula (I) is represented by formula (I-g). In certain such embodiments, the compound of formula (I) is represented by formula (I-h).
• the compound of formula (I) is represented by formula (I-a), wherein R 1b is hydrogen, and R 1d is hydrogen.
• the compound of formula (I) is represented by formula (I-b), wherein R 1b is hydrogen, and R 1d is hydrogen.
• the compound of formula (I) is represented by formula (I-c), wherein R 1b is hydrogen, and R 1d is hydrogen.
• the compound of formula (I) is represented by formula (I-d), wherein R 1b is hydrogen, and R 1d is hydrogen.
• the compound of formula (I) is represented by formula (I-e), wherein R 1b is hydrogen, and R 1d is hydrogen.
• the compound of formula (I) is represented by formula (I-f), wherein R 1b is hydrogen, and R 1d is hydrogen.
• the compound of formula (I) is represented by formula (I-g), wherein R 1b is hydrogen, and R 1d is hydrogen.
• the compound of formula (I) is represented by formula (I-h), wherein R 1b is hydrogen, and R 1d is hydrogen.
• the compound of formula (I) is represented by:
• G is —R 3 , or -L 1 -R 3 ;
• R 1c is hydrogen
• each occurrence of R 1d is independently hydrogen, fluoro, or methyl
• L 1 and R 3 have the values described herein.
• the compound of formula (I) is represented by formula (I-i). In certain such embodiments, the compound of formula (I) is represented by formula (I-j). In certain such embodiments, the compound of formula (I) is represented by formula (I-k). In certain such embodiments, the compound of formula (I) is represented by formula (I-l). In certain such embodiments, the compound of formula (I) is represented by formula (I-m). In certain such embodiments, the compound of formula (I) is represented by formula (I-n). In certain such embodiments, the compound of formula (I) is represented by formula (I-o). In certain such embodiments, the compound of formula (I) is represented by formula (I-p).
• the compound of formula (I) is represented by formula (I-i), wherein R 1d is hydrogen; and L 1 is —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• the compound of formula (I) is represented by formula (I-j), wherein R 1d is hydrogen; and L 1 is —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• the compound of formula (I) is represented by formula (I-k), wherein R 1d is hydrogen; and L 1 is —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• the compound of formula (I) is represented by formula (I-l), wherein R 1d is hydrogen; and L 1 is —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• the compound of formula (I) is represented by formula (I-m), wherein R 1d is hydrogen; and L 1 is —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• the compound of formula (I) is represented by formula (I-n), wherein R 1d is hydrogen; and L 1 is —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• the compound of formula (I) is represented by formula (I-o), wherein R 1d is hydrogen; and L 1 is —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• the compound of formula (I) is represented by formula (I-p), wherein R 1d is hydrogen; and L 1 is —CH 2 —, —CH 2 CH 2 —, or —CH 2 CH 2 CH 2 —.
• the compounds of the present invention can be prepared by methods known to one of ordinary skill in the art and/or by reference to the schemes shown below and the synthetic examples. Exemplary synthetic routes are set forth in Schemes below, and in the Examples.
• Scheme 1 shows a general route for preparing compounds represented by formula vi.
• diethyl 1H-pyrrole-2,4-dicarboxylate prepared as described by Bhattacharya et al., Tetrahedron Lett. 2006, 47(31):5481-5484
• 1H-1,2,4-triazole-3,5-dicarboxylic acid 3,5-diethyl ester (commercially available); diethyl 3,5-pyrazoledicarboxylate (commercially available); or diethyl 5-amino-1H-imidazole-2,4-dicarboxylate (commercially available)
• compounds of formula v can be prepared in a sequence analogous to that described by Askew et al., Bioorg. Med. Chem. Lett. 1995, 5(5):475.
• Primary amine iv can be cyclized with heating in the presence of base (Method D) to generate lactam v. Removal of the amide carbonyl is accomplished via reduction in the presence of a suitable hydride delivery agent such as BH 3 .THF (Method E) as described by Di Fabio et al., J. Med. Chem. 2009, 52:3238-3247.
• a suitable hydride delivery agent such as BH 3 .THF (Method E) as described by Di Fabio et al., J. Med. Chem. 2009, 52:3238-3247.
• Scheme 2 shows a general route for preparing compounds represented by formula xii.
• Sulfonamide viii can be prepared from the reaction of propargyl amine with o-nitrobenzene sulfonyl chloride (Method F). Alkylation of the sulfonamide can be effected upon treatment with a dihaloalkane such as 1-bromo-2-chloroethane in the presence of a base such as cesium carbonate with heating (Method G).
• a 3+2 sigmatropic cyclization of the terminal acetylene with ethyl diazoacetate in a solvent such as benzene using a sealed tube with heating results in the construction of the pyrazole ring in compounds of formula x (Method H) in a fashion similar as described by Zrinski et al., Heterocycles 2006, 68(9):1961.
• An intramolecular cyclization onto the pendant aliphatic chlorine with a pyrazole nitrogen can be achieved through additional heating in the presence of a base such as cesium carbonate (Method I).
• Scheme 3 shows a general route for the preparation of compounds of the type represented by formula xviii.
• Racemic or optically pure isonitriles (xiii) prepared from the corresponding ⁇ -amino acids (Sureshbabu et al., J. Org. Chem. 2009, 74:153) can be reacted with ethyl propiolate (xiv) to construct the pyrrole ring of xv through a 3+2 cycloaddition (Method K).
• a dihaloalkane such as dibromoethane in the presence of a base with heating (Method A) affords xvi.
• Formation of the tetrahydropyrrolopyrazine ring system of xvii can be carried out though the deprotonation of the carbamate nitrogen with sodium hydride, LDA or Cs 2 CO 3 followed by cyclization onto the pendent bromide (Method L; Yamaguchi et al., Chemistry Lett. 1996, 8:621). Removal of the Fmoc protecting group using piperidine (Method M) provides compounds of formula xviii.
• Scheme 4 shows a general route for the preparation of substituted compounds of the type represented by formula xx.
• Racemic or optically pure substituted 2-(aminomethyl)-1H-imidazole-4-carboxylate esters depicted by xix prepared as described by You et al., Organic Letters 2004, 6:1681, can be converted to the tetrahydroimidazopyrazine xx (Methods A, L and M) in a fashion analogous to that depicted in Scheme 3.
• Scheme 5 shows a general route for the preparation of compounds of the type represented by formula xxii.
• the Boc protecting group on 7-tert-butyl 2-ethyl 5,6-dihydro-[1,2,4]triazolo[1,5-a]pyrazine-2,7(8H)-dicarboxylate (xxi) can be removed upon treatment with an acid such as HCl or TFA (Method N).
• Scheme 6 shows a route for the preparation of substituted azole compounds of formula xxv.
• Reaction of the secondary amines represented by compounds of formula xxiii with carboxylic acids (R 3 —CO 2 H) employing coupling agents such as HBTU or HATU leads to the formation of the corresponding amide xiv (Method O).
• Conversion of the ethyl ester in xxiv to a hydroxamate is conducted by reaction with the potassium salt of hydroxylamine (Method P; Huang et al., J. Med. Chem. 2009, 52(21):6757) leading to the formation of compounds of formula xxv.
• Scheme 7 shows a route for the preparation of substituted azole compounds of formula xxvii.
• Reaction of the secondary amine in compounds represented by xxiii with sulfonyl chlorides (Method Q) leads to the formation of the corresponding sulfonamide xxvi.
• Conversion of xxvi to the corresponding hydroxamate is carried out in an analogous fashion as shown in Scheme 6 (Method P) leading to the formation of compounds of formula xxvii.
• Scheme 8 shows a route for the preparation of substituted azole compounds of formula xxix.
• the reaction of the compounds of formula xxiii with the isocyanates (R 3 —NCO; Method R) leads to the formation of the corresponding ureas of formula xxviii.
• Conversion of xxviii to the corresponding hydroxamate is carried out in an analogous fashion as shown in Scheme 6 (Method P) leading to the formation of compounds of formula xxix.
• Scheme 9 shows a route for the preparation of substituted azole compounds of formula xxxi.
• the secondary amine xxiii may also be arylated using standard nucleophilic aromatic substitution of a suitable eletrophile such as 2-chloro-nitropyridine, in the presence of suitable base, such as DIPEA at elevated temperatures (Method U).
• Amine xxiii may also be N-arylated through a copper(II)-acetate mediated coupling with a suitable arylboronic acid (Method V; Chan et al. Tetrahedron Lett. 1998, 39(19):2933). Conversion of xxx to the corresponding hydroxamate is carried out in an analogous fashion as shown in Scheme 6 (Method P) leading to the formation of compounds of formula xxxi.
• the present invention provides compounds and pharmaceutical compositions that are useful as inhibitors of HDAC enzymes, particularly HDAC6, and thus the present compounds are useful for treating proliferative, inflammatory, infectious, neurological or cardiovascular disorders.
• cancer refers to a cellular disorder characterized by uncontrolled or disregulated cell proliferation, decreased cellular differentiation, inappropriate ability to invade surrounding tissue, and/or ability to establish new growth at ectopic sites.
• cancer includes, but is not limited to, solid tumors and bloodborne tumors.
• cancer encompasses diseases of skin, tissues, organs, bone, cartilage, blood, and vessels.
• cancer further encompasses primary and metastatic cancers.
• the invention provides the compound of formula (I), or a pharmaceutically acceptable salt thereof, for use in treating cancer.
• the invention provides a pharmaceutical composition (as described herein) for the treatment of cancer comprising the compound of formula (I), or a pharmaceutically acceptable salt thereof.
• the invention provides the use of the compound of formula (I), or a pharmaceutically acceptable salt thereof, for the preparation of a pharmaceutical composition (as described herein) for the treatment of cancer.
• the invention provides the use of an effective amount of the compound of formula (I), or a pharmaceutically acceptable salt thereof, for the treatment of cancer.
• Non-limiting examples of solid tumors that can be treated with the disclosed inhibitors include pancreatic cancer; bladder cancer; colorectal cancer; breast cancer, including metastatic breast cancer; prostate cancer, including androgen-dependent and androgen-independent prostate cancer; renal cancer, including, e.g., metastatic renal cell carcinoma; hepatocellular cancer; lung cancer, including, e.g., non-small cell lung cancer (NSCLC), bronchioloalveolar carcinoma (BAC), and adenocarcinoma of the lung; ovarian cancer, including, e.g., progressive epithelial or primary peritoneal cancer; cervical cancer; gastric cancer; esophageal cancer; head and neck cancer, including, e.g., squamous cell carcinoma of the head and neck; melanoma; neuroendocrine cancer, including metastatic neuroendocrine tumors; brain tumors, including, e.g., glioma, anaplastic oligodendroglioma, adult glioblast
• Non-limiting examples of hematologic malignancies that can be treated with the disclosed inhibitors include acute myeloid leukemia (AML); chronic myelogenous leukemia (CML), including accelerated CML and CML blast phase (CML-BP); acute lymphoblastic leukemia (ALL); chronic lymphocytic leukemia (CLL); Hodgkin's disease (HD); non-Hodgkin's lymphoma (NHL), including follicular lymphoma and mantle cell lymphoma; B-cell lymphoma; T-cell lymphoma; multiple myeloma (MM); Waldenstrom's macroglobulinemia; myelodysplastic syndromes (MDS), including refractory anemia (RA), refractory anemia with ringed siderblasts (RARS), (refractory anemia with excess blasts (RAEB), and RAEB in transformation (RAEB-T); and myeloproliferative syndromes.
• AML acute myeloid
• compounds of the invention are suitable for the treatment of breast cancer, lung cancer, ovarian cancer, multiple myeloma, acute myeloid leukemia or acute lymphoblastic leukemia.
• compounds of the invention are suitable for the treatment of inflammatory and cardiovascular disorders including, but not limited to, allergies/anaphylaxis, acute and chronic inflammation, rheumatoid arthritis; autoimmunity disorders, thrombosis, hypertension, cardiac hypertrophy, and heart failure.
• compositions comprising any of the compounds as described herein, and optionally comprise a pharmaceutically acceptable carrier, adjuvant or vehicle.
• these compositions optionally further comprise one or more additional therapeutic agents.
• a pharmaceutically acceptable derivative includes, but is not limited to, pharmaceutically acceptable prodrugs, salts, esters, salts of such esters, or any other adduct or derivative which upon administration to a patient in need is capable of providing, directly or indirectly, a compound as otherwise described herein, or a metabolite or residue thereof.
• the term “pharmaceutically acceptable salt” refers to those salts which are, within the scope of sound medical judgement, suitable for use in contact with the tissues of humans and lower animals without undue toxicity, irritation, allergic response and the like, and are commensurate with a reasonable benefit/risk ratio.
• a “pharmaceutically acceptable salt” means any non-toxic salt or salt of an ester of a compound of this invention that, upon administration to a recipient, is capable of providing, either directly or indirectly, a compound of this invention or an inhibitorily active metabolite or residue thereof.
• the term “inhibitorily active metabolite or residue thereof” means that a metabolite or residue thereof is also an inhibitor of HDAC6.
• Pharmaceutically acceptable salts are well known in the art. For example, S. M. Berge et al., describe pharmaceutically acceptable salts in detail in J Pharmaceutical Sciences, 1977, 66, 1-19, incorporated herein by reference.
• Pharmaceutically acceptable salts of the compounds of this invention include those derived from suitable inorganic and organic acids and bases.
• Examples of pharmaceutically acceptable, nontoxic acid addition salts are salts of an amino group formed with inorganic acids such as hydrochloric acid, hydrobromic acid, phosphoric acid, sulfuric acid and perchloric acid or with organic acids such as acetic acid, oxalic acid, maleic acid, tartaric acid, citric acid, succinic acid or malonic acid or by using other methods used in the art such as ion exchange.
• salts include adipate, alginate, ascorbate, aspartate, benzenesulfonate, benzoate, bisulfate, borate, butyrate, camphorate, camphorsulfonate, citrate, cyclopentanepropionate, digluconate, dodecylsulfate, ethanesulfonate, formate, fumarate, glucoheptonate, glycerophosphate, gluconate, hemisulfate, heptanoate, hexanoate, hydroiodide, 2-hydroxy-ethanesulfonate, lactobionate, lactate, laurate, lauryl sulfate, malate, maleate, malonate, methanesulfonate, 2-naphthalenesulfonate, nicotinate, nitrate, oleate, oxalate, palmitate, pamoate, pectinate,
• Salts derived from appropriate bases include alkali metal, alkaline earth metal, ammonium and N + (C 1-4 alkyl) 4 salts.
• This invention also envisions the quaternization of any basic nitrogen-containing groups of the compounds disclosed herein. Water or oil-soluble or dispersable products may be obtained by such quaternization.
• Representative alkali or alkaline earth metal salts include sodium, lithium, potassium, calcium, magnesium, and the like.
• Further pharmaceutically acceptable salts include, when appropriate, nontoxic ammonium, quaternary ammonium, and amine cations formed using counterions such as halide, hydroxide, carboxylate, sulfate, phosphate, nitrate, loweralkyl sulfonate and aryl sulfonate.
• the pharmaceutically acceptable compositions of the present invention additionally comprise a pharmaceutically acceptable carrier, adjuvant, or vehicle, which, as used herein, includes any and all solvents, diluents, or other liquid vehicle, dispersion or suspension aids, surface active agents, isotonic agents, thickening or emulsifying agents, preservatives, solid binders, lubricants and the like, as suited to the particular dosage form desired.
• a pharmaceutically acceptable carrier, adjuvant, or vehicle which, as used herein, includes any and all solvents, diluents, or other liquid vehicle, dispersion or suspension aids, surface active agents, isotonic agents, thickening or emulsifying agents, preservatives, solid binders, lubricants and the like, as suited to the particular dosage form desired.
• Remington's Pharmaceutical Sciences, Sixteenth Edition, E. W. Martin (Mack Publishing Co., Easton, Pa., 1980) discloses various carriers used in formulating pharmaceutically acceptable compositions
• any conventional carrier medium is incompatible with the compounds of the invention, such as by producing any undesirable biological effect or otherwise interacting in a deleterious manner with any other component(s) of the pharmaceutically acceptable composition, its use is contemplated to be within the scope of this invention.
• materials which can serve as pharmaceutically acceptable carriers include, but are not limited to, ion exchangers, alumina, aluminum stearate, lecithin, serum proteins, such as human serum albumin, buffer substances such as phosphates, glycine, sorbic acid, or potassium sorbate, partial glyceride mixtures of saturated vegetable fatty acids, water, salts or electrolytes, such as protamine sulfate, disodium hydrogen phosphate, potassium hydrogen phosphate, sodium chloride, zinc salts, colloidal silica, magnesium trisilicate, polyvinyl pyrrolidone, polyacrylates, waxes, polyethylene-polyoxypropylene-block polymers, wool fat, sugars such as lactose, glucose and sucrose; starches such as corn starch and potato starch; cellulose and its derivatives such as sodium carboxymethyl cellulose, ethyl cellulose and cellulose acetate; powdered tragacanth; malt; gelatin; talc
• a method for treating a proliferative, inflammatory, infectious, neurological or cardiovascular disorder comprising administering an effective amount of a compound, or a pharmaceutical composition to a subject in need thereof.
• an “effective amount” of the compound or pharmaceutical composition is that amount effective for treating a proliferative, inflammatory, infectious, neurological or cardiovascular disorder, or is that amount effective for treating cancer.
• an “effective amount” of a compound is an amount which inhibits binding of HDAC6, and thereby blocks the resulting signaling cascades that lead to the abnormal activity of growth factors, receptor tyrosine kinases, protein serine/threonine kinases, G protein coupled receptors and phospholipid kinases and phosphatases.
• the compounds and compositions, according to the method of the present invention may be administered using any amount and any route of administration effective for treating the disease.
• the exact amount required will vary from subject to subject, depending on the species, age, and general condition of the subject, the severity of the infection, the particular agent, its mode of administration, and the like.
• the compounds of the invention are preferably formulated in dosage unit form for ease of administration and uniformity of dosage.
• dosage unit form refers to a physically discrete unit of agent appropriate for the patient to be treated. It will be understood, however, that the total daily usage of the compounds and compositions of the present invention will be decided by the attending physician within the scope of sound medical judgment.
• the specific effective dose level for any particular patient or organism will depend upon a variety of factors including the disease being treated and the severity of the disease; the activity of the specific compound employed; the specific composition employed; the age, body weight, general health, sex and diet of the patient; the time of administration, route of administration, and rate of excretion of the specific compound employed; the duration of the treatment; drugs used in combination or coincidental with the specific compound employed, and like factors well known in the medical arts.
• patient means an animal, preferably a mammal, and most preferably a human.
• compositions of this invention can be administered to humans and other animals orally, rectally, parenterally, intracisternally, intravaginally, intraperitoneally, topically (as by powders, ointments, or drops), bucally, as an oral or nasal spray, or the like, depending on the severity of the infection being treated.
• the compounds of the invention may be administered orally or parenterally at dosage levels of about 0.01 mg/kg to about 50 mg/kg and preferably from about 1 mg/kg to about 25 mg/kg, of subject body weight per day, one or more times a day, to obtain the desired therapeutic effect.
• Liquid dosage forms for oral administration include, but are not limited to, pharmaceutically acceptable emulsions, microemulsions, solutions, suspensions, syrups and elixirs.
• the liquid dosage forms may contain inert diluents commonly used in the art such as, for example, water or other solvents, solubilizing agents and emulsifiers such as ethyl alcohol, isopropyl alcohol, ethyl carbonate, ethyl acetate, benzyl alcohol, benzyl benzoate, propylene glycol, 1,3-butylene glycol, dimethylformamide, oils (in particular, cottonseed, groundnut, corn, germ, olive, castor, and sesame oils), glycerol, tetrahydrofurfuryl alcohol, polyethylene glycols and fatty acid esters of sorbitan, and mixtures thereof.
• the oral compositions can also include adjuvants such as, for example, water or other solvents, solubil
• sterile injectable aqueous or oleaginous suspensions may be formulated according to the known art using suitable dispersing or wetting agents and suspending agents.
• the sterile injectable preparation may also be a sterile injectable solution, suspension or emulsion in a nontoxic parenterally acceptable diluent or solvent, for example, as a solution in 1,3-butanediol.
• acceptable vehicles and solvents that may be employed are water, Ringer's solution, U.S.P. and isotonic sodium chloride solution.
• sterile, fixed oils are conventionally employed as a solvent or suspending medium.
• any bland fixed oil can be employed including synthetic mono- or diglycerides.
• fatty acids such as oleic acid are used in the preparation of injectables.
• the injectable formulations can be sterilized, for example, by filtration through a bacterial-retaining filter, or by incorporating sterilizing agents in the form of sterile solid compositions which can be dissolved or dispersed in sterile water or other sterile injectable medium prior to use.
• the rate of compound release can be controlled.
• biodegradable polymers include poly(orthoesters) and poly(anhydrides).
• Depot injectable formulations are also prepared by entrapping the compound in liposomes or microemulsions that are compatible with body tissues.
• compositions for rectal or vaginal administration are preferably suppositories which can be prepared by mixing the compounds of this invention with suitable non-irritating excipients or carriers such as cocoa butter, polyethylene glycol or a suppository wax which are solid at ambient temperature but liquid at body temperature and therefore melt in the rectum or vaginal cavity and release the active compound.
• suitable non-irritating excipients or carriers such as cocoa butter, polyethylene glycol or a suppository wax which are solid at ambient temperature but liquid at body temperature and therefore melt in the rectum or vaginal cavity and release the active compound.
• Solid dosage forms for oral administration include capsules, tablets, pills, powders, and granules.
• the active compound is mixed with at least one inert, pharmaceutically acceptable excipient or carrier such as sodium citrate or dicalcium phosphate and/or a) fillers or extenders such as starches, lactose, sucrose, glucose, mannitol, and silicic acid, b) binders such as, for example, carboxymethylcellulose, alginates, gelatin, polyvinylpyrrolidinone, sucrose, and acacia, c) humectants such as glycerol, d) disintegrating agents such as agar-agar, calcium carbonate, potato or tapioca starch, alginic acid, certain silicates, and sodium carbonate, e) solution retarding agents such as paraffin, f) absorption accelerators such as quaternary ammonium compounds, g) wetting agents such as, for example, cetyl alcohol and gly
• Solid compositions of a similar type may also be employed as fillers in soft and hard-filled gelatin capsules using such excipients as lactose or milk sugar as well as high molecular weight polyethylene glycols and the like.
• the solid dosage forms of tablets, dragees, capsules, pills, and granules can be prepared with coatings and shells such as enteric coatings and other coatings well known in the pharmaceutical formulating art. They may optionally contain opacifying agents and can also be of a composition that they release the active ingredient(s) only, or preferentially, in a certain part of the intestinal tract, optionally, in a delayed manner. Examples of embedding compositions that can be used include polymeric substances and waxes. Solid compositions of a similar type may also be employed as fillers in soft and hard-filled gelatin capsules using such excipients as lactose or milk sugar as well as high molecular weight polethylene glycols and the like.
• the active compounds can also be in micro-encapsulated form with one or more excipients as noted above.
• the solid dosage forms of tablets, dragees, capsules, pills, and granules can be prepared with coatings and shells such as enteric coatings, release controlling coatings and other coatings well known in the pharmaceutical formulating art.
• the active compound may be admixed with at least one inert diluent such as sucrose, lactose or starch.
• Such dosage forms may also comprise, as is normal practice, additional substances other than inert diluents, e.g., tableting lubricants and other tableting aids such a magnesium stearate and microcrystalline cellulose.
• the dosage forms may also comprise buffering agents. They may optionally contain opacifying agents and can also be of a composition that they release the active ingredient(s) only, or preferentially, in a certain part of the intestinal tract, optionally, in a delayed manner.
• buffering agents include polymeric substances and waxes.
• Dosage forms for topical or transdermal administration of a compound of this invention include ointments, pastes, creams, lotions, gels, powders, solutions, sprays, inhalants or patches.
• the active component is admixed under sterile conditions with a pharmaceutically acceptable carrier and any needed preservatives or buffers as may be required.
• Ophthalmic formulation, ear drops, and eye drops are also contemplated as being within the scope of this invention.
• the present invention contemplates the use of transdermal patches, which have the added advantage of providing controlled delivery of a compound to the body.
• Such dosage forms can be made by dissolving or dispensing the compound in the proper medium.
• Absorption enhancers can also be used to increase the flux of the compound across the skin. The rate can be controlled by either providing a rate controlling membrane or by dispersing the compound in a polymer matrix or gel.
• a compound of formula (I) or a pharmaceutical composition thereof is administered in conjunction with an anticancer agent.
• anticancer agent refers to any agent that is administered to a subject with cancer for purposes of treating the cancer.
• Combination therapy includes administration of the therapeutic agents concurrently or sequentially.
• the therapeutic agents can be combined into one composition which is administered to the patient.
• Non-limiting examples of DNA damaging chemotherapeutic agents include topoisomerase I inhibitors (e.g., irinotecan, topotecan, camptothecin and analogs or metabolites thereof, and doxorubicin); topoisomerase II inhibitors (e.g., etoposide, teniposide, and daunorubicin); alkylating agents (e.g., melphalan, chlorambucil, busulfan, thiotepa, ifosfamide, carmustine, lomustine, semustine, streptozocin, decarbazine, methotrexate, mitomycin C, and cyclophosphamide); DNA intercalators (e.g., cisplatin, oxaliplatin, and carboplatin); DNA intercalators and free radical generators such as bleomycin; and nucleoside mimetics (e.g., 5-fluorouracil, capecitibine
• Chemotherapeutic agents that disrupt cell replication include: paclitaxel, docetaxel, and related analogs; vincristine, vinblastin, and related analogs; thalidomide, lenalidomide, and related analogs (e.g., CC-5013 and CC-4047); protein tyrosine kinase inhibitors (e.g., imatinib mesylate and gefitinib); proteasome inhibitors (e.g., bortezomib); NF- ⁇ B inhibitors, including inhibitors of I ⁇ B kinase; antibodies which bind to proteins overexpressed in cancers and thereby downregulate cell replication (e.g., trastuzumab, rituximab, cetuximab, and bevacizumab); and other inhibitors of proteins or enzymes known to be upregulated, over-expressed or activated in cancers, the inhibition of which down-regulates cell replication.
• a compound of the invention e
• Another aspect of the invention relates to inhibiting HDAC6, activity in a biological sample or a patient, which method comprises administering to the patient, or contacting said biological sample with a compound of formula (I), or a composition comprising said compound.
• biological sample generally includes in vivo, in vitro, and ex vivo materials, and also includes, without limitation, cell cultures or extracts thereof; biopsied material obtained from a mammal or extracts thereof; and blood, saliva, urine, feces, semen, tears, or other body fluids or extracts thereof.
• Still another aspect of this invention is to provide a kit comprising separate containers in a single package, wherein the inventive pharmaceutical compounds, compositions and/or salts thereof are used in combination with pharmaceutically acceptable carriers to treat disorders, symptoms and diseases where HDAC6 plays a role.
• LCMS LC-MS spectra are run using an Agilent 1100 LC interfaced to a micromass Waters® Micromass® ZsprayTM Mass Detector (ZMD).
• HPLC Preparative HPLC are conducted using 18 ⁇ 150 mm Sunfire C-18 columns eluting with water-MeCN gradients using a Gilson instrument operated by 322 pumps with the UV/visible 155 detector triggered fraction collection set to between 200 nm and 400 nm. Mass gated fraction collection is conducted on an Agilent 1100 LC/MSD instrument.
• the crude intermediate 25 obtained in the previous step was taken up in tetrahydrofuran (1 mL) and to the solution was added 4M hydrochloric acid in 1,4-dioxane (0.50 mL, 2 mmol). The reaction was stirred at room temperature for 1.5 hours. The solution was evaporated to dryness, the residue dissolved in DMSO (1 mL) and purified on Gilson prep-HPLC to afford the title compound as a white solid (0.0043 g, 8%).
• Step 4 N-hydroxy-5-(4-methoxybenzoyl)-4,5,6,7-tetrahydropyrazolo[1,5-a]pyrazine-2-carboxamide Compound I-100
• Step 2 N-hydroxy-5-(5-(pyridin-2-yl)thiophene-2-carbonyl)-5,6,7,8-tetrahydro-4H-pyrazolo[1,5-a][1,4]diazepine-2-carboxamide Compound I-70
• Step 1 ethyl 5-(cyclopropylmethyl)-4-oxo-4,5,6,7-tetrahydropyrazolo[1,5-a]pyrazine-2-carboxylate Intermediate 33
• Step 1 ethyl 7-(1-methylcyclohexanecarbonyl)-5,6,7,8-tetrahydroimidazo[1,2-a]pyrazine-2-carboxylate Intermediate 35
• Step 2 ethyl 7-(1-methylcyclohexanecarbonyl)-5,6,7,8-tetrahydroimidazo[1,2-a]pyrazine-2-carboxylate Compound I-26
• Step 1 ethyl 7-(o-tolylcarbamoyl)-5,6,7,8-tetrahydroimidazo[1,2-a]pyrazine-2-carboxylate Intermediate 36
• the NH 2 OK solution was prepared as described above in Example 27. To crude ethyl 7-(o-tolylcarbamoyl)-5,6,7,8-tetrahydroimidazo[1,2-a]pyrazine-2-carboxylate from step 1 was added methanol (1 mL) and NH 2 OK solution (1 mL, 1.76 M in MeOH). The solution was stirred at room temperature for 1 hour. Acetic acid (0.2 mL, 2.8 mmol) was added to neutralize the excess base.
• HDAC6 activity To measure the inhibition of HDAC6 activity, purified human HDAC6 (BPS Bioscience; Cat. No. 5006) is incubated with substrate Ac-Arg-Gly-Lys(Ac)-AMC peptide (Bachem Biosciences; Cat. No. I-1925) for 1 hour at 30° C. in the presence of test compounds or vehicle DMSO control. The reaction is stopped with the HDAC inhibitor trichostatin A (Sigma; Cat. No. T8552) and the amount of Arg-Gly-Lys-AMC generated is quantitated by digestion with trypsin (Sigma; Cat. No.
• Concentration response curves are generated by calculating the fluorescence increase in test compound-treated samples relative to DMSO-treated controls, and enzyme inhibition (IC 50 ) values are determined from those curves.
• HeLa nuclear extract (BIOMOL; Cat. No. KI-140) is incubated with Ac-Arg-Gly-Lys(Ac)-AMC peptide (Bachem Biosciences; Cat. No. 1-1925) in the presence of test compounds or vehicle DMSO control.
• the HeLa nuclear extract is enriched for Class I enzymes HDAC1, -2 and -3.
• the reaction is stopped with the HDAC inhibitor Trichostatin A (Sigma; Cat. No. T8552) and the amount of Arg-Gly-Lys-AMC generated is quantitated by digestion with trypsin (Sigma; Cat. No.
• Concentration response curves are generated by calculating the fluorescence increase in test compound-treated samples relative to DMSO-treated controls, and enzyme inhibition (IC 50 ) values are determined from those curves.
• Cellular potency and selectivity of compounds are determined using a published assay (Haggarty et al., Proc. Natl. Acad. Sci. USA 2003, 100 (8): 4389-4394) using Hela cells (ATCC cat#CCL-2TM) which are maintained in MEM medium (Invitrogen) supplemented with 10% FBS; or multiple myeloma cells RPMI-8226 (ATCC cat#CCL-155TM) which are maintained in RPMI 1640 medium (Invitrogen) supplemented with 10% FBS. Briefly, cells are treated with inhibitors for 6 or 24 h and either lysed for Western blotting, or fixed for immunofluorescence analyses.
• HDAC6 potency is determined by measuring K40 hyperacetylation of alpha-tubulin with an acetylation selective monoclonal antibody (Sigma cat#T7451) in IC50 experiments. Selectivity against Class I HDAC activity is determined similarly using an antibody that recognizes hyperacetylation of histone H4 (Upstate cat#06-866) in the Western blotting assay or nuclear acetylation (Abeam cat#ab21623) in the immunofluorescence assay.
• mice Female NCr-Nude mice (age 6-8 weeks, Charles River Labs) are aseptically injected into the subcutaneous space in the right dorsal flank with 1.0 ⁇ 5.0 ⁇ 10 6 cells (SKOV-3, HCT-116, BxPC3) in 100 ⁇ L of a 1:1 ratio of serum-free culture media (Sigma Aldrich) and BD MatrigelTM (BD Biosciences) using a 1 mL 263 ⁇ 8 gauge needle (Becton Dickinson Ref#309625).
• serum-free culture media Sigma Aldrich
• BD MatrigelTM BD Biosciences
• Becton Dickinson Ref#309625 Becton Dickinson Ref#309625
• some xenograft models require the use of more immunocompromised strains of mice such as CB-17 SCID (Charles River Labs) or NOD-SCID (Jackson Laboratory).
• tumor fragments in which small fragments of tumor tissue (approximately 1 mm 3 ) are implanted subcutaneously in the right dorsal flank of anesthetized (3-5% isoflourane/oxygen mixture) NCr-Nude, CB-17 SCID or NOD-SCID mice (age 5-8 weeks, Charles River Labs or Jackson Laboratory) via a 13-ga trocar needle (Popper & Sons 7927).
• Tumor volume is monitored twice weekly with Vernier calipers.
• Drug treatment typically includes the test compound as a single agent, and may include combinations of the test compound and other anticancer agents. Dosing and schedules are determined for each experiment based on previous results obtained from pharmacokinetic/pharmacodynamic and maximum tolerated dose studies. The control group will receive vehicle without any drug.
• test compound 100-200 ⁇ L is administered via intravenous (27-ga needle), oral (20-ga gavage needle) or subcutaneous (27-ga needle) routes at various doses and schedules. Tumor size and body weight are measured twice a week and the study is terminated when the control tumors reach approximately 2000 mm 3 , and/or if tumor volume exceeds 10% of the animal body weight or if the body weight loss exceeds 20%.
• the differences in tumor growth trends over time between pairs of treatment groups are assessed using linear mixed effects regression models. These models account for the fact that each animal is measured at multiple time points. A separate model is fit for each comparison, and the areas under the curve (AUC) for each treatment group are calculated using the predicted values from the model. The percent decrease in AUC (dAUC) relative to the reference group is then calculated. A statistically significant P value suggests that the trends over time for the two treatment groups are different.
• the tumor measurements observed on a date pre-specified by the researcher are analyzed to assess tumor growth inhibition.
• a T/C ratio is calculated for each animal by dividing the tumor measurement for the given animal by the mean tumor measurement across all control animals.
• the T/C ratios across a treatment group are compared to the T/C ratios of the control group using a two-tailed Welch's t-test.
• FDR False Discovery Rate
• compounds of the invention inhibit HDAC6.
• compounds of the invention inhibit HDAC6 with an IC 50 value of less than 100 nM including compounds: I-2, I-10, I-17, I-20, I-22, I-28, I-31, I-32, I-35, I-42, I-44, I-47, I-51, I-68, I-75, I-85, I-87, I-89, I-91, I-94, I-99, I-116, I-197, I-240.
• compounds of the invention inhibit HDAC6 with an IC 50 value of greater than 100 nM and less than 1 ⁇ M including compounds: I-1, I-11, I-12, I-13, I-14, I-21, I-23, I-24, I-29, I-30, I-40, I-45, I-48, I-50, I-52, I-57, I-58, I-60, I-61, I-62, I-65, I-66, I-67, I-70, I-76, I-81, I-92, I-93, I-97, I-100, I-101, I-102, I-103, I-104, I-107, I-110, I-112, I-113, I-114, I-117, I-119, I-120, I-121, I-241.
• compounds of the invention inhibit HDAC6 with an IC50 value of greater than 1 ⁇ M and less than 10 ⁇ M including compounds: I-3, I-5, I-6, I-7, I-8, I-15, I-16, I-18, I-26, I-27, I-34, I-37, I-38, I-41, I-46, I-55, I-56, I-59, I-63, I-64, I-72, I-74, I-77, I-79, I-80, I-83, I-88, I-90, I-95, I-96, I-98, I-105, I-106, I-108, I-109, I-115, I-118, I-122, I-123.
• compounds of the invention inhibit HDAC6 with an IC50 value of greater than 10 ⁇ M including compounds: I-4, I-19, I-36, I-53, I-54, I-69, I-71, I-73, I-82, I-84, I-86.
• the ratio of HDAC IC50 (as obtained in the nuclear extract assay described above) to HDAC6 IC50 is less than 5 (HDAC IC 50 /HDAC6 IC 50 ). In certain embodiments, the ratio of HDAC IC 50 to HDAC6 IC 50 is between 5 and 10. In certain embodiments, the ratio of HDAC IC 50 to HDAC6 IC 50 is between 10 and 100.

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